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kiaa_sub

ID: 1505648403 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 123 (123)
Sequences: 376 (260.8)
Seq/Len: 3.057
Nf(neff/√len): 23.5

HHblits Results: (2016_02)
Sequences per length for each position, BEFORE the coverage/gap filter was applied

Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 3.057).

Sequences per length for each position, AFTER the coverage/gap filter was applied
Legend: If visible, the positions blocked in grey are regions that have > 75% gaps and were automatically trimmed and excluded in the GREMLIN analysis.

Trim query Generate MSA using: Filter MSA GREMLIN
Start: End: E-value: Iterations: Coverage: Remove gaps: Prior:

GREMLIN Results:
Residue pairs sorted by coevolution strength:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.

ij Scaled score Prob
83_G98_K3.0971.00
102_V108_L2.6771.00
66_A110_L2.3611.00
23_L27_A2.1971.00
66_A77_F2.1411.00
50_V80_I2.1041.00
102_V106_G1.9200.99
52_R82_Y1.8880.99
29_V32_I1.8550.99
3_W9_Q1.8430.99
25_S49_I1.8240.99
69_A111_H1.6160.98
23_L26_S1.5670.97
48_P75_G1.5540.97
87_E97_L1.5310.96
4_N8_D1.5090.96
21_L25_S1.5010.96
42_I51_L1.4370.94
27_A34_I1.4230.94
26_S29_V1.4190.94
39_K63_E1.3530.92
58_I108_L1.3470.91
69_A109_E1.3330.91
55_H99_Y1.3200.90
15_I38_G1.2850.89
15_I32_I1.2780.88
21_L73_F1.2560.87
115_K119_T1.2550.87
24_T27_A1.2510.87
50_V73_F1.2350.86
53_T81_L1.2140.85
1_Q9_Q1.1870.83
22_L26_S1.1850.83
78_T100_I1.1560.80
24_T49_I1.1550.80
54_R82_Y1.1540.80
4_N7_H1.1510.80
66_A69_A1.1430.79
23_L29_V1.1400.79
9_Q51_L1.1060.76
44_D75_G1.1000.76
42_I77_F1.0980.75
96_G101_G1.0930.75
54_R61_G1.0860.74
3_W6_G1.0760.73
61_G87_E1.0740.73
58_I101_G1.0700.73
34_I111_H1.0570.71
42_I66_A1.0550.71
12_H53_T1.0510.71
12_H30_Y1.0420.70
98_K112_G1.0420.70
58_I100_I1.0380.69
69_A74_Q1.0260.68
21_L24_T1.0230.68
35_S38_G1.0230.68
6_G9_Q1.0070.66
38_G73_F1.0030.66
Legend: Only predictions with Scaled Score > 1 are listed. For all 3L/2 predictions, click on one of the links below.
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
NEW Features
HHsearch Results: (06Aug15)
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
PDB M Cov P(%) HHΔ  
3h09A20.853721.70.917Contact Map
3syjA10.853717.50.921Contact Map
1wxrA10.853716.70.922Contact Map
4c2lA10.959314.60.924Contact Map
3szeA10.853712.70.925Contact Map
2uvfA20.8455120.927Contact Map
4mr0A20.75619.50.93Contact Map
1ia5A10.95128.30.932Contact Map
2iq7A70.951280.932Contact Map
3k3oA10.853780.932Contact Map
M = number of chains, if homo-oligomer
Cov = coverage of hit
P(%) = probability

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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